Variant report

Variant	rs7745648
Chromosome Location	chr6:54667963-54667964
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:54666819..54668967-chr6:54700012..54702691,2	MCF-7	breast:
2	chr6:54667811..54670876-chr6:54711137..54713039,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10456175	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10807486	0.85[TSI][hapmap]
rs10948858	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12190982	0.82[EUR][1000 genomes]
rs12195610	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12196417	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12197945	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12198000	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12198696	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12199020	1.00[CEU][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12203906	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12203996	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12204479	0.91[YRI][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12205259	0.87[AMR][1000 genomes]
rs12205707	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12209581	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12210433	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12211620	0.94[EUR][1000 genomes]
rs12215996	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12216148	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12216154	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12216371	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28819710	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3913635	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6904875	1.00[EUR][1000 genomes]
rs6915978	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72955751	1.00[EUR][1000 genomes]
rs72955777	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72955781	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72955782	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72957543	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72957545	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72957569	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72957574	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72957593	0.83[EUR][1000 genomes]
rs72967427	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72967428	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7745529	1.00[CEU][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7751328	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9464136	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9464152	1.00[YRI][hapmap]
rs9474995	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9474998	0.86[GIH][hapmap]
rs9475003	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9475012	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9475015	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9475016	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9475022	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9475023	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9475025	0.92[GIH][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9475028	0.92[GIH][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9475048	0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54666200-54668200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr6:54666200-54668200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr6:54666200-54668200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:54666200-54668200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:54666200-54668200	Enhancers	HMEC	breast
6	chr6:54666200-54669200	Enhancers	Fetal Intestine Large	intestine
7	chr6:54666400-54668000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:54666400-54668000	Enhancers	Muscle Satellite Cultured Cells	--
9	chr6:54666400-54668400	Enhancers	NHLF	lung
10	chr6:54666600-54668400	Enhancers	Hela-S3	cervix
11	chr6:54666600-54668400	Enhancers	NHEK	skin
12	chr6:54666600-54669400	Weak transcription	HSMMtube	muscle
13	chr6:54666800-54668200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:54667000-54668600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:54667200-54668000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr6:54667200-54668200	Enhancers	Stomach Mucosa	stomach
17	chr6:54667200-54668800	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr6:54667200-54668800	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr6:54667600-54668200	Enhancers	H1 Cell Line	embryonic stem cell
20	chr6:54667600-54668200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:54667600-54668200	Enhancers	Osteobl	bone
22	chr6:54667600-54668400	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr6:54667800-54668200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
24	chr6:54667800-54668200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr6:54667800-54668200	Enhancers	H9 Cell Line	embryonic stem cell
26	chr6:54667800-54668200	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr6:54667800-54668200	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr6:54667800-54668200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:54667800-54668200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:54667800-54668200	Enhancers	Placenta	Placenta
31	chr6:54667800-54668200	Enhancers	Right Atrium	heart
32	chr6:54667800-54668400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr6:54667800-54668400	Enhancers	Placenta Amnion	Placenta Amnion
34	chr6:54667800-54669000	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr6:54667800-54670800	Enhancers	Fetal Intestine Small	intestine

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